BLASTP 2.2.26 [Sep-21-2011]
Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer,
Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997),
"Gapped BLAST and PSI-BLAST: a new generation of protein database search
programs", Nucleic Acids Res. 25:3389-3402.
Reference for compositional score matrix adjustment: Altschul, Stephen F.,
John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis,
Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches
using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109.
Query= 005181
(710 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|4FCG|A Chain A, Structure Of The Leucine-Rich Repeat Domain Of The Type
Iii Effector Xcv3220 (Xopl)
Length = 328
Score = 38.5 bits (88), Expect = 0.012, Method: Compositional matrix adjust.
Identities = 54/220 (24%), Positives = 91/220 (41%), Gaps = 9/220 (4%)
Query: 432 VLDLEDAPVDYLPEGVGNLFNLHYLSVKNTEVKIIPKSIRNLLSLEILDLKNTLVSELPV 491
L+L P+ P+ L +L + ++ + +P + + LE L L + LP
Sbjct: 85 ALELRSVPLPQFPDQAFRLSHLQHXTIDAAGLXELPDTXQQFAGLETLTLARNPLRALPA 144
Query: 492 EIRNLKKLRYLMVYRYNYTTGSIMPAEAVAKSLSSPPQ---YLQRLYL-MGNMKKLPDWI 547
I +L +LR L + T +P + S Q LQ L L ++ LP I
Sbjct: 145 SIASLNRLRELSIRACPELTE--LPEPLASTDASGEHQGLVNLQSLRLEWTGIRSLPASI 202
Query: 548 FKLENLIRLGLELSGL-AEEPIRVLQASPNLLELRLTGTYDYELFHFEAGWFPKLQKLLL 606
L+NL L + S L A P + P L EL L G + G L++L+L
Sbjct: 203 ANLQNLKSLKIRNSPLSALGP--AIHHLPKLEELDLRGCTALRNYPPIFGGRAPLKRLIL 260
Query: 607 WDFVAVKSVIIEKGAMPDIRELEIGPCPLLMEIPIGIEHL 646
D + ++ ++ + + +L++ C L +P I L
Sbjct: 261 KDCSNLLTLPLDIHRLTQLEKLDLRGCVNLSRLPSLIAQL 300
Score = 33.5 bits (75), Expect = 0.39, Method: Compositional matrix adjust.
Identities = 18/53 (33%), Positives = 30/53 (56%)
Query: 430 MKVLDLEDAPVDYLPEGVGNLFNLHYLSVKNTEVKIIPKSIRNLLSLEILDLK 482
++ L LE + LP + NL NL L ++N+ + + +I +L LE LDL+
Sbjct: 185 LQSLRLEWTGIRSLPASIANLQNLKSLKIRNSPLSALGPAIHHLPKLEELDLR 237
>pdb|3RIZ|A Chain A, Crystal Structure Of The Plant Steroid Receptor Bri1
Ectodomain
pdb|3RJ0|A Chain A, Plant Steroid Receptor Bri1 Ectodomain In Complex With
Brassinolide
Length = 772
Score = 37.4 bits (85), Expect = 0.026, Method: Compositional matrix adjust.
Identities = 63/239 (26%), Positives = 103/239 (43%), Gaps = 28/239 (11%)
Query: 428 KLMKVLDLEDAPVDY------LPEGVGNLFNLHYLSVKNTEVKI-IPKSIRNLLSLEILD 480
+LM V LE +D+ +P G+ N NL+++S+ N + IPK I L +L IL
Sbjct: 458 ELMYVKTLETLILDFNDLTGEIPSGLSNCTNLNWISLSNNRLTGEIPKWIGRLENLAILK 517
Query: 481 LKNTLVS-ELPVEIRNLKKLRYLMVYRYNYTTGSIMPAEAVAKSLSSPPQYL--QRLYLM 537
L N S +P E+ + + L +L + N G+I PA +S ++ +R +
Sbjct: 518 LSNNSFSGNIPAELGDCRSLIWLDL-NTNLFNGTI-PAAMFKQSGKIAANFIAGKRYVYI 575
Query: 538 GN--MKKLPDWIFKLENLIRLGLELSGLAEEPI-RVLQASPNLLELRLTGTYDYELFHFE 594
N MKK L LE G+ E + R+ +P + R+ G + F
Sbjct: 576 KNDGMKKECHGAGNL-------LEFQGIRSEQLNRLSTRNPCNITSRVYGGHTSPTFDNN 628
Query: 595 AG-WFPKLQKLLLWDFVAVKSVIIEKGAMPDIRELEIGPCPLLMEIPIGIEHLRNLKLL 652
F + +L ++ E G+MP + L +G + IP + LR L +L
Sbjct: 629 GSMMFLDMSYNMLSGYIPK-----EIGSMPYLFILNLGHNDISGSIPDEVGDLRGLNIL 682
Score = 30.4 bits (67), Expect = 3.6, Method: Compositional matrix adjust.
Identities = 31/95 (32%), Positives = 45/95 (47%), Gaps = 7/95 (7%)
Query: 466 IPKSIRNLLSLEILDL-KNTLVSELPVEIRNLKKLRYLMVYRYNYTTGSIMPAEAVAKSL 524
IP S+ +L L L L N L E+P E+ +K L L++ +N TG I + +L
Sbjct: 431 IPSSLGSLSKLRDLKLWLNMLEGEIPQELMYVKTLETLIL-DFNDLTGEIPSGLSNCTNL 489
Query: 525 SSPPQYLQRLYLMGNMKKLPDWIFKLENLIRLGLE 559
+ RL ++P WI +LENL L L
Sbjct: 490 NWISLSNNRL-----TGEIPKWIGRLENLAILKLS 519
>pdb|1Z6T|A Chain A, Structure Of The Apoptotic Protease-activating Factor 1
Bound To Adp
pdb|1Z6T|B Chain B, Structure Of The Apoptotic Protease-activating Factor 1
Bound To Adp
pdb|1Z6T|C Chain C, Structure Of The Apoptotic Protease-activating Factor 1
Bound To Adp
pdb|1Z6T|D Chain D, Structure Of The Apoptotic Protease-activating Factor 1
Bound To Adp
Length = 591
Score = 37.4 bits (85), Expect = 0.031, Method: Compositional matrix adjust.
Identities = 82/354 (23%), Positives = 136/354 (38%), Gaps = 72/354 (20%)
Query: 34 IQSERSVVAVVGEGGLGKTTVAGKIFNSEGLKTHFNCRA----WITVGKEYKKNDLLR-- 87
++ E V + G G GK+ +A + L C W++VGK+ K L++
Sbjct: 143 LKGEPGWVTIHGMAGCGKSVLAAEAVRDHSLLE--GCFPGGVHWVSVGKQDKSGLLMKLQ 200
Query: 88 ---TILKEFHRVANQPAPVEIHDMEEMELITTLRDHLKDKSYMVVFDDVWKIDFWGDVEY 144
T L + + Q P+ I + ++ I LR H + +++ DDVW D W
Sbjct: 201 NLCTRLDQDESFS-QRLPLNIEEAKDRLRILMLRKHPRS---LLILDDVW--DSWV---L 251
Query: 145 ALLDSKKCGRIIVTTRHMNVAKYCKSSSSVHVHELETLPPNEAWKLFCRKAFGPSSGGSC 204
DS+ C +I++TTR +V V P E+ + G G
Sbjct: 252 KAFDSQ-C-QILLTTRDKSVTDSVMGPKYV--------VPVES-------SLGKEKGLEI 294
Query: 205 PS--------ELRELSRDILAKCGGLPLAIVAVGGLLSTKNMVVSEWK--------KLFD 248
S +L E + I+ +C G PL + +G LL + W+ K F
Sbjct: 295 LSLFVNMKKADLPEQAHSIIKECKGSPLVVSLIGALLRD---FPNRWEYYLKQLQNKQFK 351
Query: 249 RMGSILGSDPHLKDCNRVLSEGYHDLPHHLKSCLLYFGLFPESCKVNCARLIRLWIAEGF 308
R+ D D +S L +K + + KV L LW E
Sbjct: 352 RIRKSSSYDYEALD--EAMSISVEMLREDIKDYYTDLSILQKDVKVPTKVLCILWDME-- 407
Query: 309 VPYCKRPTSEQVAEECLNELIDRSLVQVSERDISGRARICQVHDLMHEIVVRKT 362
+E+V E+ L E +++SL+ D +G++ +HDL + + K
Sbjct: 408 --------TEEV-EDILQEFVNKSLLFC---DRNGKSFRYYLHDLQVDFLTEKN 449
>pdb|3RGX|A Chain A, Structural Insight Into Brassinosteroid Perception By Bri1
pdb|3RGZ|A Chain A, Structural Insight Into Brassinosteroid Perception By Bri1
Length = 768
Score = 37.0 bits (84), Expect = 0.039, Method: Compositional matrix adjust.
Identities = 63/239 (26%), Positives = 103/239 (43%), Gaps = 28/239 (11%)
Query: 428 KLMKVLDLEDAPVDY------LPEGVGNLFNLHYLSVKNTEVKI-IPKSIRNLLSLEILD 480
+LM V LE +D+ +P G+ N NL+++S+ N + IPK I L +L IL
Sbjct: 461 ELMYVKTLETLILDFNDLTGEIPSGLSNCTNLNWISLSNNRLTGEIPKWIGRLENLAILK 520
Query: 481 LKNTLVS-ELPVEIRNLKKLRYLMVYRYNYTTGSIMPAEAVAKSLSSPPQYL--QRLYLM 537
L N S +P E+ + + L +L + N G+I PA +S ++ +R +
Sbjct: 521 LSNNSFSGNIPAELGDCRSLIWLDL-NTNLFNGTI-PAAMFKQSGKIAANFIAGKRYVYI 578
Query: 538 GN--MKKLPDWIFKLENLIRLGLELSGLAEEPI-RVLQASPNLLELRLTGTYDYELFHFE 594
N MKK L LE G+ E + R+ +P + R+ G + F
Sbjct: 579 KNDGMKKECHGAGNL-------LEFQGIRSEQLNRLSTRNPCNITSRVYGGHTSPTFDNN 631
Query: 595 AG-WFPKLQKLLLWDFVAVKSVIIEKGAMPDIRELEIGPCPLLMEIPIGIEHLRNLKLL 652
F + +L ++ E G+MP + L +G + IP + LR L +L
Sbjct: 632 GSMMFLDMSYNMLSGYIPK-----EIGSMPYLFILNLGHNDISGSIPDEVGDLRGLNIL 685
Score = 30.0 bits (66), Expect = 4.4, Method: Compositional matrix adjust.
Identities = 31/95 (32%), Positives = 45/95 (47%), Gaps = 7/95 (7%)
Query: 466 IPKSIRNLLSLEILDL-KNTLVSELPVEIRNLKKLRYLMVYRYNYTTGSIMPAEAVAKSL 524
IP S+ +L L L L N L E+P E+ +K L L++ +N TG I + +L
Sbjct: 434 IPSSLGSLSKLRDLKLWLNMLEGEIPQELMYVKTLETLIL-DFNDLTGEIPSGLSNCTNL 492
Query: 525 SSPPQYLQRLYLMGNMKKLPDWIFKLENLIRLGLE 559
+ RL ++P WI +LENL L L
Sbjct: 493 NWISLSNNRL-----TGEIPKWIGRLENLAILKLS 522
>pdb|3AUX|A Chain A, Crystal Structure Of Rad50 Bound To Adp
pdb|3AUY|A Chain A, Crystal Structure Of Rad50 Bound To Adp
pdb|3AUY|B Chain B, Crystal Structure Of Rad50 Bound To Adp
pdb|3AV0|B Chain B, Crystal Structure Of Mre11-Rad50 Bound To Atp S
Length = 371
Score = 35.8 bits (81), Expect = 0.092, Method: Compositional matrix adjust.
Identities = 18/50 (36%), Positives = 31/50 (62%), Gaps = 1/50 (2%)
Query: 31 NQLIQSERSVVAVVGEGGLGKTTVAGKIFNS-EGLKTHFNCRAWITVGKE 79
N I+ E+ +VA++GE G GK+++ +F + G ++FN IT GK+
Sbjct: 18 NSRIKFEKGIVAIIGENGSGKSSIFEAVFFALFGAGSNFNYDTIITKGKK 67
>pdb|3IZA|A Chain A, Structure Of An Apoptosome-Procaspase-9 Card Complex
pdb|3IZA|B Chain B, Structure Of An Apoptosome-Procaspase-9 Card Complex
pdb|3IZA|C Chain C, Structure Of An Apoptosome-Procaspase-9 Card Complex
pdb|3IZA|D Chain D, Structure Of An Apoptosome-Procaspase-9 Card Complex
pdb|3IZA|E Chain E, Structure Of An Apoptosome-Procaspase-9 Card Complex
pdb|3IZA|F Chain F, Structure Of An Apoptosome-Procaspase-9 Card Complex
pdb|3IZA|G Chain G, Structure Of An Apoptosome-Procaspase-9 Card Complex
Length = 1263
Score = 34.7 bits (78), Expect = 0.17, Method: Compositional matrix adjust.
Identities = 53/217 (24%), Positives = 87/217 (40%), Gaps = 45/217 (20%)
Query: 34 IQSERSVVAVVGEGGLGKTTVAGKIFNSEGLKTHFNCRA----WITVGKEYKKNDLLR-- 87
++ E V + G G GK+ +A + L C W++VGK+ K L++
Sbjct: 149 LKGEPGWVTIHGMAGCGKSVLAAEAVRDHSLLE--GCFPGGVHWVSVGKQDKSGLLMKLQ 206
Query: 88 ---TILKEFHRVANQPAPVEIHDMEEMELITTLRDHLKDKSYMVVFDDVWKIDFWGDVEY 144
T L + + Q P+ I + ++ I LR H + +++ DDVW D W
Sbjct: 207 NLCTRLDQDESFS-QRLPLNIEEAKDRLRILMLRKHPRS---LLILDDVW--DSW---VL 257
Query: 145 ALLDSKKCGRIIVTTRHMNVAKYCKSSSSVHVHELETLPPNEAWKLFCRKAFGPSSGGSC 204
DS+ +I++TTR +V V P E+ + G G
Sbjct: 258 KAFDSQ--CQILLTTRDKSVTDSVMGPKYV--------VPVES-------SLGKEKGLEI 300
Query: 205 PS--------ELRELSRDILAKCGGLPLAIVAVGGLL 233
S +L E + I+ +C G PL + +G LL
Sbjct: 301 LSLFVNMKKADLPEQAHSIIKECKGSPLVVSLIGALL 337
>pdb|4B8C|D Chain D, Nuclease Module Of The Yeast Ccr4-Not Complex
pdb|4B8C|J Chain J, Nuclease Module Of The Yeast Ccr4-Not Complex
pdb|4B8C|K Chain K, Nuclease Module Of The Yeast Ccr4-Not Complex
pdb|4B8C|L Chain L, Nuclease Module Of The Yeast Ccr4-Not Complex
Length = 727
Score = 34.3 bits (77), Expect = 0.21, Method: Compositional matrix adjust.
Identities = 18/67 (26%), Positives = 35/67 (52%), Gaps = 3/67 (4%)
Query: 448 GNLFNLHYLS---VKNTEVKIIPKSIRNLLSLEILDLKNTLVSELPVEIRNLKKLRYLMV 504
N+F +L+ + + +P I+NL +L +LDL + ++ LP E+ + +L+Y
Sbjct: 241 ANIFKYDFLTRLYLNGNSLTELPAEIKNLSNLRVLDLSHNRLTSLPAELGSCFQLKYFYF 300
Query: 505 YRYNYTT 511
+ TT
Sbjct: 301 FDNMVTT 307
>pdb|3SFZ|A Chain A, Crystal Structure Of Full-Length Murine Apaf-1
Length = 1249
Score = 33.9 bits (76), Expect = 0.32, Method: Compositional matrix adjust.
Identities = 50/208 (24%), Positives = 87/208 (41%), Gaps = 27/208 (12%)
Query: 34 IQSERSVVAVVGEGGLGKTTVAGKIFNSEGLKTHFNCRA----WITVGKEYKKNDLLR-- 87
+ E V + G G GK+ +A + L C + W+++GK+ K L++
Sbjct: 143 LNGEPGWVTIYGMAGCGKSVLAAEAVRDHSLLE--GCFSGGVHWVSIGKQDKSGLLMKLQ 200
Query: 88 --TILKEFHRVANQPAPVEIHDMEEMELITTLRDHLKDKSYMVVFDDVWKIDFWGDVEYA 145
+ + +Q P+ I + ++ + LR H + +++ DDVW D W V A
Sbjct: 201 NLCMRLDQEESFSQRLPLNIEEAKDRLRVLMLRKHPRS---LLILDDVW--DPW--VLKA 253
Query: 146 LLDSKKCGRIIVTTRHMNVAKYCKSSSSVHVHELETLPPNEAWKLFCRKAFGPSSGGSCP 205
+C +I++TTR +V HV +E+ E L F P
Sbjct: 254 F--DNQC-QILLTTRDKSVTDSVMGPK--HVVPVESGLGREK-GLEILSLFVNMKKEDLP 307
Query: 206 SELRELSRDILAKCGGLPLAIVAVGGLL 233
+E + I+ +C G PL + +G LL
Sbjct: 308 AE----AHSIIKECKGSPLVVSLIGALL 331
>pdb|2P1M|B Chain B, Tir1-ask1 Complex Structure
pdb|2P1N|B Chain B, Mechanism Of Auxin Perception By The Tir1 Ubiqutin Ligase
pdb|2P1N|E Chain E, Mechanism Of Auxin Perception By The Tir1 Ubiqutin Ligase
pdb|2P1O|B Chain B, Mechanism Of Auxin Perception By The Tir1 Ubiquitin Ligase
pdb|2P1P|B Chain B, Mechanism Of Auxin Perception By The Tir1 Ubiquitin Ligase
pdb|2P1Q|B Chain B, Mechanism Of Auxin Perception By The Tir1 Ubiquitin Ligase
pdb|3C6N|B Chain B, Small Molecule Agonists And Antagonists Of F-Box Protein-
Substrate Interactions In Auxin Perception And Signaling
pdb|3C6O|B Chain B, Small Molecule Agonists And Antagonists Of F-Box
Protein-Substrate Interactions In Auxin Perception And
Signaling
pdb|3C6P|B Chain B, Small Molecule Agonists And Antagonists Of F-Box Protein-
Substrate Interactions In Auxin Perception And Signaling
Length = 594
Score = 32.0 bits (71), Expect = 1.3, Method: Compositional matrix adjust.
Identities = 55/244 (22%), Positives = 95/244 (38%), Gaps = 35/244 (14%)
Query: 423 SIANFKLMKVLDLEDAPVDYLPEGVGNLFNLHYLSVKNTEVKII--------PKSIRNLL 474
S NFK++ + E D L NL L ++ ++V + P + +L+
Sbjct: 128 SFKNFKVLVLSSCEGFSTDGLAAIAATCRNLKELDLRESDVDDVSGHWLSHFPDTYTSLV 187
Query: 475 SLEILDLKN----TLVSELPVEIRNLKKLRYLMVYRYNYTTGSIMPAEAVAKSLSSPPQY 530
SL I L + + + L NLK L+ +P E +A L PQ
Sbjct: 188 SLNISCLASEVSFSALERLVTRCPNLKSLKL----------NRAVPLEKLATLLQRAPQ- 236
Query: 531 LQRLYLMGNMKKLPDWIFKLENLIRLGLE----LSGLAEEPIRVLQASPNL------LEL 580
L+ L G ++ ++ ++ G + LSG + L A ++ L L
Sbjct: 237 LEELGTGGYTAEVRPDVYSGLSVALSGCKELRCLSGFWDAVPAYLPAVYSVCSRLTTLNL 296
Query: 581 RLTGTYDYELFHFEAGWFPKLQKLLLWDFVAVKSVIIEKGAMPDIRELEIGPC-PLLMEI 639
Y+L PKLQ+L + D++ + + D+REL + P P +ME
Sbjct: 297 SYATVQSYDLVKLLCQ-CPKLQRLWVLDYIEDAGLEVLASTCKDLRELRVFPSEPFVMEP 355
Query: 640 PIGI 643
+ +
Sbjct: 356 NVAL 359
>pdb|3SHF|A Chain A, Crystal Structure Of The R265s Mutant Of Full-Length
Murine Apaf-1
Length = 1256
Score = 31.6 bits (70), Expect = 1.6, Method: Compositional matrix adjust.
Identities = 49/208 (23%), Positives = 86/208 (41%), Gaps = 27/208 (12%)
Query: 34 IQSERSVVAVVGEGGLGKTTVAGKIFNSEGLKTHFNCRA----WITVGKEYKKNDLLR-- 87
+ E V + G G GK+ +A + L C + W+++GK+ K L++
Sbjct: 150 LNGEPGWVTIYGMAGCGKSVLAAEAVRDHSLLE--GCFSGGVHWVSIGKQDKSGLLMKLQ 207
Query: 88 --TILKEFHRVANQPAPVEIHDMEEMELITTLRDHLKDKSYMVVFDDVWKIDFWGDVEYA 145
+ + +Q P+ I + ++ + LR H + +++ DDVW D W V A
Sbjct: 208 NLCMRLDQEESFSQRLPLNIEEAKDRLRVLMLRKHPRS---LLILDDVW--DPW--VLKA 260
Query: 146 LLDSKKCGRIIVTTRHMNVAKYCKSSSSVHVHELETLPPNEAWKLFCRKAFGPSSGGSCP 205
+C +I++TT +V HV +E+ E L F P
Sbjct: 261 F--DNQC-QILLTTSDKSVTDSVMGPK--HVVPVESGLGREK-GLEILSLFVNMKKEDLP 314
Query: 206 SELRELSRDILAKCGGLPLAIVAVGGLL 233
+E + I+ +C G PL + +G LL
Sbjct: 315 AE----AHSIIKECKGSPLVVSLIGALL 338
>pdb|3RFS|A Chain A, Design Of A Binding Scaffold Based On Variable Lymphocyte
Receptors Of Jawless Vertebrates By Module Engineering
pdb|3RFS|B Chain B, Design Of A Binding Scaffold Based On Variable Lymphocyte
Receptors Of Jawless Vertebrates By Module Engineering
Length = 272
Score = 31.6 bits (70), Expect = 1.7, Method: Compositional matrix adjust.
Identities = 40/149 (26%), Positives = 72/149 (48%), Gaps = 19/149 (12%)
Query: 418 SFMNASIANFKLMKVLDLEDAPVDYLPEGV-GNLFNLHYLSVKNTEVKIIPKSIRN-LLS 475
S N +K L L + + LP+GV L NL YL++ + +++ +PK + + L +
Sbjct: 99 SLPNGVFDKLTNLKELVLVENQLQSLPDGVFDKLTNLTYLNLAHNQLQSLPKGVFDKLTN 158
Query: 476 LEILDLKNTLVSELPVEIRN-LKKLRYLMVYRYNYTTGSIMPAEAVAKSLSSPPQYLQRL 534
L LDL + LP + + L +L+ L +Y+ + +P + V L+S LQ +
Sbjct: 159 LTELDLSYNQLQSLPEGVFDKLTQLKDLRLYQNQLKS---VP-DGVFDRLTS----LQYI 210
Query: 535 YLMGN--------MKKLPDWIFKLENLIR 555
+L N ++ L +WI K ++R
Sbjct: 211 WLHDNPWDCTCPGIRYLSEWINKHSGVVR 239
>pdb|3J04|A Chain A, Em Structure Of The Heavy Meromyosin Subfragment Of Chick
Smooth Muscle Myosin With Regulatory Light Chain In
Phosphorylated State
pdb|3J04|D Chain D, Em Structure Of The Heavy Meromyosin Subfragment Of Chick
Smooth Muscle Myosin With Regulatory Light Chain In
Phosphorylated State
Length = 909
Score = 31.2 bits (69), Expect = 2.1, Method: Compositional matrix adjust.
Identities = 34/134 (25%), Positives = 60/134 (44%), Gaps = 20/134 (14%)
Query: 330 DRSLVQVSERDISGRARICQVHDLMHEIVVRKTEGLSFGRVLNGVDLSRCSKTRRIAIQR 389
+R+ Q S D + ++C LM V T + R+ G D+ + ++T+ A
Sbjct: 369 ERNTDQASMPDNTAAQKVCH---LMGINVTDFTRSILTPRIKVGRDVVQKAQTKEQA--- 422
Query: 390 SIDDGALESIKDSKVRSVF---LFNVDKLPD-------SFMNA-SIANFKLMKVLDLEDA 438
D A+E++ +K +F L V+K D SF+ IA F++ ++ E
Sbjct: 423 ---DFAIEALAKAKFERLFRWILTRVNKALDKTKRQGASFLGILDIAGFEIFEINSFEQL 479
Query: 439 PVDYLPEGVGNLFN 452
++Y E + LFN
Sbjct: 480 CINYTNEKLQQLFN 493
>pdb|1BR2|A Chain A, Smooth Muscle Myosin Motor Domain Complexed With
Mgadp.Alf4
pdb|1BR2|B Chain B, Smooth Muscle Myosin Motor Domain Complexed With
Mgadp.Alf4
pdb|1BR2|C Chain C, Smooth Muscle Myosin Motor Domain Complexed With
Mgadp.Alf4
pdb|1BR2|D Chain D, Smooth Muscle Myosin Motor Domain Complexed With
Mgadp.Alf4
pdb|1BR2|E Chain E, Smooth Muscle Myosin Motor Domain Complexed With
Mgadp.Alf4
pdb|1BR2|F Chain F, Smooth Muscle Myosin Motor Domain Complexed With
Mgadp.Alf4
Length = 791
Score = 31.2 bits (69), Expect = 2.2, Method: Compositional matrix adjust.
Identities = 54/266 (20%), Positives = 104/266 (39%), Gaps = 45/266 (16%)
Query: 228 AVGGLLSTKNMVVSEWKKL----FDRMGSILGSD--PHLKDCNRVLSEGYHDLPHHLKSC 281
A G + KN S + K FD G I+G++ +L + +R + + + H+
Sbjct: 232 AFGNAKTVKNDNSSRFGKFIRINFDVTGYIVGANIETYLLEKSRAIRQAKDERTFHI--- 288
Query: 282 LLYFGLFPESCKVNCARLIRLWIAEGFVPYCKRPTSEQVAEECLNELIDR-SLVQVSERD 340
Y+ + S ++ L+ + F+ P Q +E E ++ +++ +E +
Sbjct: 289 -FYYLIAGASEQMRNDLLLEGFNNYTFLSNGHVPIPAQQDDEMFQETLEAMTIMGFTEEE 347
Query: 341 ISGRARICQVHDLMHEIVVRKTEGLSFGRV--------------LNGVDLSRCSKTRRIA 386
+ R+ + IV +K + +N D +R T RI
Sbjct: 348 QTSILRVVSSVLQLGNIVFKKERNTDQASMPDNTAAQKVCHLMGINVTDFTRSILTPRIK 407
Query: 387 IQRSI---------DDGALESIKDSKVRSVF---LFNVDKLPD-------SFMNA-SIAN 426
+ R + D A+E++ +K +F L V+K D SF+ IA
Sbjct: 408 VGRDVVQKAQTKEQADFAIEALAKAKFERLFRWILTRVNKALDKTKRQGASFLGILDIAG 467
Query: 427 FKLMKVLDLEDAPVDYLPEGVGNLFN 452
F++ ++ E ++Y E + LFN
Sbjct: 468 FEIFEINSFEQLCINYTNEKLQQLFN 493
>pdb|1XKU|A Chain A, Crystal Structure Of The Dimeric Protein Core Of Decorin,
The Archetypal Small Leucine-Rich Repeat Proteoglycan
Length = 330
Score = 30.8 bits (68), Expect = 2.5, Method: Compositional matrix adjust.
Identities = 38/139 (27%), Positives = 63/139 (45%), Gaps = 17/139 (12%)
Query: 453 LHYLSVKNTEVKIIPKSIRNLLS-LEILDLKNTLVSELPVE---IRNLKKLRYLMVYRYN 508
L L V E+ + KS+ N L+ + +++L + +E + +KKL Y+ + N
Sbjct: 123 LQELRVHENEITKVRKSVFNGLNQMIVVELGTNPLKSSGIENGAFQGMKKLSYIRIADTN 182
Query: 509 YTTGSIMPAEAVAKSLSSPPQYLQRLYLMGN-MKKLPDWIFK-LENLIRLGLELSGLAEE 566
TT + + L P L L+L GN + K+ K L NL +LGL + ++
Sbjct: 183 ITT--------IPQGL---PPSLTELHLDGNKITKVDAASLKGLNNLAKLGLSFNSISAV 231
Query: 567 PIRVLQASPNLLELRLTGT 585
L +P+L EL L
Sbjct: 232 DNGSLANTPHLRELHLNNN 250
>pdb|1XCD|A Chain A, Dimeric Bovine Tissue-Extracted Decorin, Crystal Form 1
pdb|1XEC|A Chain A, Dimeric Bovine Tissue-Extracted Decorin, Crystal Form 2
pdb|1XEC|B Chain B, Dimeric Bovine Tissue-Extracted Decorin, Crystal Form 2
Length = 329
Score = 30.8 bits (68), Expect = 2.5, Method: Compositional matrix adjust.
Identities = 38/139 (27%), Positives = 63/139 (45%), Gaps = 17/139 (12%)
Query: 453 LHYLSVKNTEVKIIPKSIRNLLS-LEILDLKNTLVSELPVE---IRNLKKLRYLMVYRYN 508
L L V E+ + KS+ N L+ + +++L + +E + +KKL Y+ + N
Sbjct: 123 LQELRVHENEITKVRKSVFNGLNQMIVVELGTNPLKSSGIENGAFQGMKKLSYIRIADTN 182
Query: 509 YTTGSIMPAEAVAKSLSSPPQYLQRLYLMGN-MKKLPDWIFK-LENLIRLGLELSGLAEE 566
TT + + L P L L+L GN + K+ K L NL +LGL + ++
Sbjct: 183 ITT--------IPQGL---PPSLTELHLDGNKITKVDAASLKGLNNLAKLGLSFNSISAV 231
Query: 567 PIRVLQASPNLLELRLTGT 585
L +P+L EL L
Sbjct: 232 DNGSLANTPHLRELHLNNN 250
>pdb|1BR1|A Chain A, Smooth Muscle Myosin Motor Domain-Essential Light Chain
Complex With Mgadp.Alf4 Bound At The Active Site
pdb|1BR1|C Chain C, Smooth Muscle Myosin Motor Domain-Essential Light Chain
Complex With Mgadp.Alf4 Bound At The Active Site
pdb|1BR1|E Chain E, Smooth Muscle Myosin Motor Domain-Essential Light Chain
Complex With Mgadp.Alf4 Bound At The Active Site
pdb|1BR1|G Chain G, Smooth Muscle Myosin Motor Domain-Essential Light Chain
Complex With Mgadp.Alf4 Bound At The Active Site
pdb|1BR4|A Chain A, Smooth Muscle Myosin Motor Domain-Essential Light Chain
Complex With Mgadp.Bef3 Bound At The Active Site
pdb|1BR4|C Chain C, Smooth Muscle Myosin Motor Domain-Essential Light Chain
Complex With Mgadp.Bef3 Bound At The Active Site
pdb|1BR4|E Chain E, Smooth Muscle Myosin Motor Domain-Essential Light Chain
Complex With Mgadp.Bef3 Bound At The Active Site
pdb|1BR4|G Chain G, Smooth Muscle Myosin Motor Domain-Essential Light Chain
Complex With Mgadp.Bef3 Bound At The Active Site
Length = 820
Score = 30.8 bits (68), Expect = 2.6, Method: Compositional matrix adjust.
Identities = 54/266 (20%), Positives = 104/266 (39%), Gaps = 45/266 (16%)
Query: 228 AVGGLLSTKNMVVSEWKKL----FDRMGSILGSD--PHLKDCNRVLSEGYHDLPHHLKSC 281
A G + KN S + K FD G I+G++ +L + +R + + + H+
Sbjct: 232 AFGNAKTVKNDNSSRFGKFIRINFDVTGYIVGANIETYLLEKSRAIRQAKDERTFHI--- 288
Query: 282 LLYFGLFPESCKVNCARLIRLWIAEGFVPYCKRPTSEQVAEECLNELIDR-SLVQVSERD 340
Y+ + S ++ L+ + F+ P Q +E E ++ +++ +E +
Sbjct: 289 -FYYLIAGASEQMRNDLLLEGFNNYTFLSNGHVPIPAQQDDEMFQETLEAMTIMGFTEEE 347
Query: 341 ISGRARICQVHDLMHEIVVRKTEGLSFGRV--------------LNGVDLSRCSKTRRIA 386
+ R+ + IV +K + +N D +R T RI
Sbjct: 348 QTSILRVVSSVLQLGNIVFKKERNTDQASMPDNTAAQKVCHLMGINVTDFTRSILTPRIK 407
Query: 387 IQRSI---------DDGALESIKDSKVRSVF---LFNVDKLPD-------SFMNA-SIAN 426
+ R + D A+E++ +K +F L V+K D SF+ IA
Sbjct: 408 VGRDVVQKAQTKEQADFAIEALAKAKFERLFRWILTRVNKALDKTKRQGASFLGILDIAG 467
Query: 427 FKLMKVLDLEDAPVDYLPEGVGNLFN 452
F++ ++ E ++Y E + LFN
Sbjct: 468 FEIFEINSFEQLCINYTNEKLQQLFN 493
>pdb|3DTP|A Chain A, Tarantula Heavy Meromyosin Obtained By Flexible Docking To
Tarantula Muscle Thick Filament Cryo-Em 3d-Map
Length = 971
Score = 30.8 bits (68), Expect = 3.0, Method: Compositional matrix adjust.
Identities = 34/134 (25%), Positives = 60/134 (44%), Gaps = 20/134 (14%)
Query: 330 DRSLVQVSERDISGRARICQVHDLMHEIVVRKTEGLSFGRVLNGVDLSRCSKTRRIAIQR 389
+R+ Q S D + ++C LM V T + R+ G D+ + ++T+ A
Sbjct: 369 ERNTDQASMPDNTAAQKVCH---LMGINVTDFTRSILTPRIKVGRDVVQKAQTKEQA--- 422
Query: 390 SIDDGALESIKDSKVRSVF---LFNVDKLPD-------SFMNA-SIANFKLMKVLDLEDA 438
D A+E++ +K +F L V+K D SF+ IA F++ ++ E
Sbjct: 423 ---DFAIEALAKAKFERLFRWILTRVNKALDKTKRQGASFLGILDIAGFEIFEINSFEQL 479
Query: 439 PVDYLPEGVGNLFN 452
++Y E + LFN
Sbjct: 480 CINYTNEKLQQLFN 493
>pdb|3DTP|B Chain B, Tarantula Heavy Meromyosin Obtained By Flexible Docking To
Tarantula Muscle Thick Filament Cryo-Em 3d-Map
Length = 973
Score = 30.4 bits (67), Expect = 3.2, Method: Compositional matrix adjust.
Identities = 34/134 (25%), Positives = 60/134 (44%), Gaps = 20/134 (14%)
Query: 330 DRSLVQVSERDISGRARICQVHDLMHEIVVRKTEGLSFGRVLNGVDLSRCSKTRRIAIQR 389
+R+ Q S D + ++C LM V T + R+ G D+ + ++T+ A
Sbjct: 369 ERNTDQASMPDNTAAQKVCH---LMGINVTDFTRSILTPRIKVGRDVVQKAQTKEQA--- 422
Query: 390 SIDDGALESIKDSKVRSVF---LFNVDKLPD-------SFMNA-SIANFKLMKVLDLEDA 438
D A+E++ +K +F L V+K D SF+ IA F++ ++ E
Sbjct: 423 ---DFAIEALAKAKFERLFRWILTRVNKALDKTKRQGASFLGILDIAGFEIFEINSFEQL 479
Query: 439 PVDYLPEGVGNLFN 452
++Y E + LFN
Sbjct: 480 CINYTNEKLQQLFN 493
>pdb|1I84|S Chain S, Cryo-Em Structure Of The Heavy Meromyosin Subfragment Of
Chicken Gizzard Smooth Muscle Myosin With Regulatory
Light Chain In The Dephosphorylated State. Only C Alphas
Provided For Regulatory Light Chain. Only Backbone Atoms
Provided For S2 Fragment.
pdb|1I84|V Chain V, Cryo-Em Structure Of The Heavy Meromyosin Subfragment Of
Chicken Gizzard Smooth Muscle Myosin With Regulatory
Light Chain In The Dephosphorylated State. Only C Alphas
Provided For Regulatory Light Chain. Only Backbone Atoms
Provided For S2 Fragment
Length = 1184
Score = 30.4 bits (67), Expect = 3.7, Method: Compositional matrix adjust.
Identities = 34/134 (25%), Positives = 60/134 (44%), Gaps = 20/134 (14%)
Query: 330 DRSLVQVSERDISGRARICQVHDLMHEIVVRKTEGLSFGRVLNGVDLSRCSKTRRIAIQR 389
+R+ Q S D + ++C LM V T + R+ G D+ + ++T+ A
Sbjct: 369 ERNTDQASMPDNTAAQKVCH---LMGINVTDFTRSILTPRIKVGRDVVQKAQTKEQA--- 422
Query: 390 SIDDGALESIKDSKVRSVF---LFNVDKLPD-------SFMNA-SIANFKLMKVLDLEDA 438
D A+E++ +K +F L V+K D SF+ IA F++ ++ E
Sbjct: 423 ---DFAIEALAKAKFERLFRWILTRVNKALDKTKRQGASFLGILDIAGFEIFEINSFEQL 479
Query: 439 PVDYLPEGVGNLFN 452
++Y E + LFN
Sbjct: 480 CINYTNEKLQQLFN 493
>pdb|1OGQ|A Chain A, The Crystal Structure Of Pgip (Polygalacturonase
Inhibiting Protein), A Leucine Rich Repeat Protein
Involved In Plant Defense
Length = 313
Score = 30.4 bits (67), Expect = 3.8, Method: Compositional matrix adjust.
Identities = 27/113 (23%), Positives = 46/113 (40%), Gaps = 5/113 (4%)
Query: 489 LPVEIRNLKKLRYLMVYRYNYTTGSIMPAEAVAKSLSSPPQYLQRLYLMGNMKKLPDWIF 548
+P + NL L +L + N G I PA A L Y+ + G +PD++
Sbjct: 68 IPSSLANLPYLNFLYIGGINNLVGPIPPAIAKLTQLHY--LYITHTNVSG---AIPDFLS 122
Query: 549 KLENLIRLGLELSGLAEEPIRVLQASPNLLELRLTGTYDYELFHFEAGWFPKL 601
+++ L+ L + L+ + + PNL+ + G G F KL
Sbjct: 123 QIKTLVTLDFSYNALSGTLPPSISSLPNLVGITFDGNRISGAIPDSYGSFSKL 175
>pdb|2ID5|A Chain A, Crystal Structure Of The Lingo-1 Ectodomain
pdb|2ID5|B Chain B, Crystal Structure Of The Lingo-1 Ectodomain
pdb|2ID5|C Chain C, Crystal Structure Of The Lingo-1 Ectodomain
pdb|2ID5|D Chain D, Crystal Structure Of The Lingo-1 Ectodomain
Length = 477
Score = 30.0 bits (66), Expect = 4.3, Method: Compositional matrix adjust.
Identities = 27/84 (32%), Positives = 45/84 (53%), Gaps = 3/84 (3%)
Query: 424 IANFKLMKVLDLEDAPVDYL-PEGVGNLFNLHYLSVKNTEVKIIPKSIRNLLS-LEILDL 481
A+F ++ L+L + V + P NLFNL L +++ +K+IP + LS L LD+
Sbjct: 52 FASFPHLEELELNENIVSAVEPGAFNNLFNLRTLGLRSNRLKLIPLGVFTGLSNLTKLDI 111
Query: 482 -KNTLVSELPVEIRNLKKLRYLMV 504
+N +V L ++L L+ L V
Sbjct: 112 SENKIVILLDYMFQDLYNLKSLEV 135
>pdb|1W2Z|A Chain A, Psao And Xenon
pdb|1W2Z|B Chain B, Psao And Xenon
pdb|1W2Z|C Chain C, Psao And Xenon
pdb|1W2Z|D Chain D, Psao And Xenon
Length = 649
Score = 30.0 bits (66), Expect = 5.2, Method: Compositional matrix adjust.
Identities = 14/51 (27%), Positives = 27/51 (52%)
Query: 515 MPAEAVAKSLSSPPQYLQRLYLMGNMKKLPDWIFKLENLIRLGLELSGLAE 565
+P E++ +S + ++ + +GN + DW FK I+ + LSG+ E
Sbjct: 362 IPNESIEESRTEVNLIVRTIVTVGNXDNVIDWEFKASGSIKPSIALSGILE 412
>pdb|1KSI|A Chain A, Crystal Structure Of A Eukaryotic (Pea Seedling)
Copper-Containing Amine Oxidase At 2.2a Resolution
pdb|1KSI|B Chain B, Crystal Structure Of A Eukaryotic (Pea Seedling)
Copper-Containing Amine Oxidase At 2.2a Resolution
Length = 642
Score = 30.0 bits (66), Expect = 5.2, Method: Compositional matrix adjust.
Identities = 14/51 (27%), Positives = 27/51 (52%)
Query: 515 MPAEAVAKSLSSPPQYLQRLYLMGNMKKLPDWIFKLENLIRLGLELSGLAE 565
+P E++ +S + ++ + +GN + DW FK I+ + LSG+ E
Sbjct: 357 IPNESIEESRTEVNLIVRTIVTVGNXDNVIDWEFKASGSIKPSIALSGILE 407
Database: pdbaa
Posted date: Mar 3, 2013 10:34 PM
Number of letters in database: 14,973,337
Number of sequences in database: 62,578
Lambda K H
0.322 0.139 0.418
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 21,079,347
Number of Sequences: 62578
Number of extensions: 877021
Number of successful extensions: 2325
Number of sequences better than 100.0: 39
Number of HSP's better than 100.0 without gapping: 7
Number of HSP's successfully gapped in prelim test: 32
Number of HSP's that attempted gapping in prelim test: 2305
Number of HSP's gapped (non-prelim): 48
length of query: 710
length of database: 14,973,337
effective HSP length: 106
effective length of query: 604
effective length of database: 8,340,069
effective search space: 5037401676
effective search space used: 5037401676
T: 11
A: 40
X1: 16 ( 7.4 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.9 bits)
S2: 55 (25.8 bits)